Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
MITF

Cell type

Cell type Class
Epidermis
Cell type
501A
Primary Tissue
Skin
Tissue Diagnosis
Melanoma

Attributes by original data submitter

Sample

source_name
501mel_3HA-MITF-WT
cell line
501mel
cell type
melanoma cell line
genotype/variation
expressing 3HA-MITF-WT
chip antibody
HA (12CA5, Roche)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
3HA-MITF ChIP was performed on 0.4% PFA-fixed chromatin that was sheared with a Covaris S220 as previously described (Strub et al., 2011). 70 ug chromatin was used for anti-HA immunoprecipitation. Libraries were prepared using recommended Illumina protocols

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
78466422
Reads aligned (%)
81.2
Duplicates removed (%)
17.7
Number of peaks
53211 (qval < 1E-05)

hg19

Number of total reads
78466422
Reads aligned (%)
80.7
Duplicates removed (%)
18.8
Number of peaks
52971 (qval < 1E-05)

Base call quality data from DBCLS SRA